Archive for the 'SciLit' Category

Single cell estimation from bulk data

April 12, 2020

Accurate estimation of cell composition in bulk expression through robust integration of single-cell information

Brandon Jew, Marcus Alvarez, Elior Rahmani, Zong Miao, Arthur Ko, Jae Hoon Sul, Kirsi H. Pietiläinen, Päivi Pajukanta, Eran Halperin doi:

https://doi.org/10.1101/669911

Comparing tads across samples

April 6, 2020

newly published tool

TADsplimer reveals splits and mergers of topologically associating domains for epigenetic regulation of transcription

Guangyu Wang, Qingshu Meng, Bo Xia, Shuo Zhang, Jie Lv, Dongyu Zhao, Yanqiang Li, Xin Wang, Lili Zhang, John P. Cooke, Qi Cao & Kaifu Chen

https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-01992-7

The effect of travel restrictions on the spread of the 2019 novel coronavirus (COVID-19) outbreak

April 1, 2020

https://science.sciencemag.org/content/early/2020/03/05/science.aba9757

The effect of travel restrictions on the spread of the 2019 novel coronavirus (COVID-19) outbreak

Matteo Chinazzi1, Jessica T. Davis1, Marco Ajelli2, Corrado
Gioannini3, Maria Litvinova3, Stefano Merler2, Ana Pastore y Piontti1, Kunpeng Mu1, Luca Rossi3, Kaiyuan Sun4, Cécile Viboud4, Xinyue Xiong1, Hongjie Yu5, M. Elizabeth Halloran6,7, Ira M. Longini Jr.8,*, Alessandro Vespignani1,3,*

https://www.nytimes.com/2020/03/13/science/coronavirus-social-networks-data.html

Genetic modifiers of risk and age at onset in GBA associated Parkinson’s disease and Lewy body dementia. – PubMed – NCBI

March 8, 2020

https://www.ncbi.nlm.nih.gov/pubmed/31755958

Crack down on genomic surveillance

March 4, 2020

https://www.nature.com/articles/d41586-019-03687-x

Distinct microbial and immune niches of the human colon

February 23, 2020

connects microbiome & immune cells

https://www.nature.com/articles/s41590-020-0602-z.epdf

Kylie R. James, Tomas Gomes, Rasa Elmentaite, …Sarah A. Teichmann

iGenomics: Comprehensive DNA Sequence Analysis on your Smartphone | bioRxiv

February 16, 2020

iGenomics: Comprehensive DNA Sequence Analysis on your Smartphone | bioRxiv https://www.biorxiv.org/content/10.1101/2020.02.11.944132v1

Nongenic cancer-risk SNPs affect oncogenes, tumour-suppressor genes, and immune function

February 8, 2020

https://www.nature.com/articles/s41416-019-0614-3

chip-seq normalization

February 8, 2020

https://www.biorxiv.org/content/10.1101/2020.01.31.929174v1

Kernel-based whole-genome prediction of complex traits: a review. – PubMed – NCBI

February 8, 2020

https://www.ncbi.nlm.nih.gov/pubmed/25360145/